BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy4124
(99 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1ASK|A Chain A, Nuclear Transport Factor 2 (Ntf2) H66a Mutant
pdb|1ASK|B Chain B, Nuclear Transport Factor 2 (Ntf2) H66a Mutant
Length = 127
Score = 60.5 bits (145), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 57/125 (45%), Gaps = 36/125 (28%)
Query: 6 NPAYEAIGKGFVQQYYALFDDPAQRPNLINMYNTETSFMTFEGIQLQGAVKIMEKFN--- 62
P +E IG F+Q YY LFD+ R L +Y + S +T+EG Q QG I+EK +
Sbjct: 4 KPIWEQIGSSFIQHYYQLFDN--DRTQLGAIY-IDASCLTWEGQQFQGKAAIVEKLSSLP 60
Query: 63 ------------------------------CDDDPPHAYSQIFVLKPLGASFYCQHDIFR 92
D+DP + Q+F+LK + ++ C +D+FR
Sbjct: 61 FQKIQASITAQDHQPTPDSCIISMVVGQLKADEDPIMGFHQMFLLKNINDAWVCTNDMFR 120
Query: 93 LGIHD 97
L +H+
Sbjct: 121 LALHN 125
>pdb|1OUN|A Chain A, Crystal Structure Of Nuclear Transport Factor 2 (Ntf2)
pdb|1OUN|B Chain B, Crystal Structure Of Nuclear Transport Factor 2 (Ntf2)
pdb|1A2K|A Chain A, Gdpran-Ntf2 Complex
pdb|1A2K|B Chain B, Gdpran-Ntf2 Complex
pdb|1GY6|A Chain A, Ntf2 From Rat, Ammonium Sulphate Conditions
pdb|1GY6|B Chain B, Ntf2 From Rat, Ammonium Sulphate Conditions
Length = 127
Score = 60.5 bits (145), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 57/125 (45%), Gaps = 36/125 (28%)
Query: 6 NPAYEAIGKGFVQQYYALFDDPAQRPNLINMYNTETSFMTFEGIQLQGAVKIMEKFN--- 62
P +E IG F+Q YY LFD+ R L +Y + S +T+EG Q QG I+EK +
Sbjct: 4 KPIWEQIGSSFIQHYYQLFDN--DRTQLGAIY-IDASCLTWEGQQFQGKAAIVEKLSSLP 60
Query: 63 ------------------------------CDDDPPHAYSQIFVLKPLGASFYCQHDIFR 92
D+DP + Q+F+LK + ++ C +D+FR
Sbjct: 61 FQKIQHSITAQDHQPTPDSCIISMVVGQLKADEDPIMGFHQMFLLKNINDAWVCTNDMFR 120
Query: 93 LGIHD 97
L +H+
Sbjct: 121 LALHN 125
>pdb|1AR0|A Chain A, Nuclear Transport Factor 2 (Ntf2) E42k Mutant
pdb|1AR0|B Chain B, Nuclear Transport Factor 2 (Ntf2) E42k Mutant
Length = 127
Score = 58.9 bits (141), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 36/125 (28%), Positives = 57/125 (45%), Gaps = 36/125 (28%)
Query: 6 NPAYEAIGKGFVQQYYALFDDPAQRPNLINMYNTETSFMTFEGIQLQGAVKIMEKFN--- 62
P +E IG F+Q YY LFD+ R L +Y + S +T++G Q QG I+EK +
Sbjct: 4 KPIWEQIGSSFIQHYYQLFDN--DRTQLGAIY-IDASCLTWKGQQFQGKAAIVEKLSSLP 60
Query: 63 ------------------------------CDDDPPHAYSQIFVLKPLGASFYCQHDIFR 92
D+DP + Q+F+LK + ++ C +D+FR
Sbjct: 61 FQKIQHSITAQDHQPTPDSCIISMVVGQLKADEDPIMGFHQMFLLKNINDAWVCTNDMFR 120
Query: 93 LGIHD 97
L +H+
Sbjct: 121 LALHN 125
>pdb|1JB2|A Chain A, Crystal Structure Of Ntf2 M84e Mutant
pdb|1JB2|B Chain B, Crystal Structure Of Ntf2 M84e Mutant
Length = 127
Score = 58.5 bits (140), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 36/124 (29%), Positives = 56/124 (45%), Gaps = 36/124 (29%)
Query: 7 PAYEAIGKGFVQQYYALFDDPAQRPNLINMYNTETSFMTFEGIQLQGAVKIMEKFN---- 62
P +E IG F+ YY LFD+ R L +Y + S +T+EG Q QG I+EK +
Sbjct: 5 PIWEQIGSSFINHYYQLFDN--DRTQLGAIY-IDASCLTWEGQQFQGKAAIVEKLSSLPF 61
Query: 63 -----------------------------CDDDPPHAYSQIFVLKPLGASFYCQHDIFRL 93
D+DP + Q+F+LK + ++ C +D+FRL
Sbjct: 62 QKIQHSITAQDHQPTPDSCIISEVVGQLKADEDPIMGFHQMFLLKNINDAWVCTNDMFRL 121
Query: 94 GIHD 97
+H+
Sbjct: 122 ALHN 125
>pdb|1QMA|A Chain A, Nuclear Transport Factor 2 (Ntf2) W7a Mutant
pdb|1QMA|B Chain B, Nuclear Transport Factor 2 (Ntf2) W7a Mutant
pdb|1QMA|C Chain C, Nuclear Transport Factor 2 (Ntf2) W7a Mutant
pdb|1QMA|D Chain D, Nuclear Transport Factor 2 (Ntf2) W7a Mutant
Length = 126
Score = 58.2 bits (139), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 56/125 (44%), Gaps = 36/125 (28%)
Query: 6 NPAYEAIGKGFVQQYYALFDDPAQRPNLINMYNTETSFMTFEGIQLQGAVKIMEKFN--- 62
P E IG F+Q YY LFD+ R L +Y + S +T+EG Q QG I+EK +
Sbjct: 3 KPIAEQIGSSFIQHYYQLFDN--DRTQLGAIY-IDASCLTWEGQQFQGKAAIVEKLSSLP 59
Query: 63 ------------------------------CDDDPPHAYSQIFVLKPLGASFYCQHDIFR 92
D+DP + Q+F+LK + ++ C +D+FR
Sbjct: 60 FQKIQHSITAQDHQPTPDSCIISMVVGQLKADEDPIMGFHQMFLLKNINDAWVCTNDMFR 119
Query: 93 LGIHD 97
L +H+
Sbjct: 120 LALHN 124
>pdb|1U5O|A Chain A, Structure Of The D23a Mutant Of The Nuclear Transport
Carrier Ntf2
pdb|1U5O|B Chain B, Structure Of The D23a Mutant Of The Nuclear Transport
Carrier Ntf2
Length = 127
Score = 57.4 bits (137), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 36/125 (28%), Positives = 56/125 (44%), Gaps = 36/125 (28%)
Query: 6 NPAYEAIGKGFVQQYYALFDDPAQRPNLINMYNTETSFMTFEGIQLQGAVKIMEKFN--- 62
P +E IG F+Q YY LF + R L +Y + S +T+EG Q QG I+EK +
Sbjct: 4 KPIWEQIGSSFIQHYYQLFAN--DRTQLGAIY-IDASCLTWEGQQFQGKAAIVEKLSSLP 60
Query: 63 ------------------------------CDDDPPHAYSQIFVLKPLGASFYCQHDIFR 92
D+DP + Q+F+LK + ++ C +D+FR
Sbjct: 61 FQKIQHSITAQDHQPTPDSCIISMVVGQLKADEDPIMGFHQMFLLKNINDAWVCTNDMFR 120
Query: 93 LGIHD 97
L +H+
Sbjct: 121 LALHN 125
>pdb|1GY5|A Chain A, D92n,D94n Double Point Mutant Of Human Nuclear Transport
Factor 2 (Ntf2)
pdb|1GY5|B Chain B, D92n,D94n Double Point Mutant Of Human Nuclear Transport
Factor 2 (Ntf2)
Length = 127
Score = 57.0 bits (136), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 35/124 (28%), Positives = 57/124 (45%), Gaps = 36/124 (29%)
Query: 7 PAYEAIGKGFVQQYYALFDDPAQRPNLINMYNTETSFMTFEGIQLQGAVKIMEKFN---- 62
P +E IG F+Q YY LFD+ R L +Y + S +T+EG Q QG I+EK +
Sbjct: 5 PIWEQIGSSFIQHYYQLFDN--DRTQLGAIY-IDASCLTWEGQQFQGKAAIVEKLSSLPF 61
Query: 63 -----------------------------CDDDPPHAYSQIFVLKPLGASFYCQHDIFRL 93
+++P + Q+F+LK + ++ C +D+FRL
Sbjct: 62 QKIQHSITAQDHQPTPDSCIISMVVGQLKANENPIMGFHQMFLLKNINDAWVCTNDMFRL 121
Query: 94 GIHD 97
+H+
Sbjct: 122 ALHN 125
>pdb|1JB5|A Chain A, Crystal Structure Of Ntf2 M118e Mutant
pdb|1JB5|B Chain B, Crystal Structure Of Ntf2 M118e Mutant
Length = 127
Score = 56.6 bits (135), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 36/124 (29%), Positives = 55/124 (44%), Gaps = 36/124 (29%)
Query: 7 PAYEAIGKGFVQQYYALFDDPAQRPNLINMYNTETSFMTFEGIQLQGAVKIMEKFN---- 62
P +E IG F+ YY LFD+ R L +Y + S +T+EG Q QG I+EK +
Sbjct: 5 PIWEQIGSSFINHYYQLFDN--DRTQLGAIY-IDASCLTWEGQQFQGKAAIVEKLSSLPF 61
Query: 63 -----------------------------CDDDPPHAYSQIFVLKPLGASFYCQHDIFRL 93
D+DP + Q+F+LK + ++ C +D FRL
Sbjct: 62 QKIQHSITAQDHQPTPDSCIISMVVGQLKADEDPIMGFHQMFLLKNINDAWVCTNDEFRL 121
Query: 94 GIHD 97
+H+
Sbjct: 122 ALHN 125
>pdb|1JB4|A Chain A, Crystal Structure Of Ntf2 M102e Mutant
pdb|1JB4|B Chain B, Crystal Structure Of Ntf2 M102e Mutant
Length = 127
Score = 56.6 bits (135), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 36/124 (29%), Positives = 55/124 (44%), Gaps = 36/124 (29%)
Query: 7 PAYEAIGKGFVQQYYALFDDPAQRPNLINMYNTETSFMTFEGIQLQGAVKIMEKFN---- 62
P +E IG F+ YY LFD+ R L +Y + S +T+EG Q QG I+EK +
Sbjct: 5 PIWEQIGSSFINHYYQLFDN--DRTQLGAIY-IDASCLTWEGQQFQGKAAIVEKLSSLPF 61
Query: 63 -----------------------------CDDDPPHAYSQIFVLKPLGASFYCQHDIFRL 93
D+DP + Q F+LK + ++ C +D+FRL
Sbjct: 62 QKIQHSITAQDHQPTPDSCIISMVVGQLKADEDPIMGFHQEFLLKNINDAWVCTNDMFRL 121
Query: 94 GIHD 97
+H+
Sbjct: 122 ALHN 125
>pdb|1ZO2|A Chain A, Structure Of Nuclear Transport Factor 2 (Ntf2) From
Cryptosporidium Parvum
pdb|1ZO2|B Chain B, Structure Of Nuclear Transport Factor 2 (Ntf2) From
Cryptosporidium Parvum
Length = 129
Score = 53.9 bits (128), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 41/128 (32%), Positives = 53/128 (41%), Gaps = 37/128 (28%)
Query: 2 SSQLNPAYEAIGKGFVQQYYALFDDPAQRPNLINMYNTETSFMTFEGIQLQGAVKIMEKF 61
S LNP ++ IGK FVQ YY F RP L +Y + S +T+E Q QG I+ KF
Sbjct: 4 SINLNPQFDQIGKQFVQHYYQTFQ--TNRPALGGLYGPQ-SMLTWEDTQFQGQANIVNKF 60
Query: 62 NC---------------------------------DDDPPHAYSQIFVLKPLG-ASFYCQ 87
N DD P +SQ+F L P G F
Sbjct: 61 NSLNFQRVQFEITRVDCQPSPNNGSIVFVTGDVRIDDGQPLKFSQVFNLMPSGNGGFMIF 120
Query: 88 HDIFRLGI 95
+D+FRL +
Sbjct: 121 NDLFRLNL 128
>pdb|1GY7|A Chain A, N77y Point Mutant Of S.Cerevisiae Ntf2
pdb|1GY7|B Chain B, N77y Point Mutant Of S.Cerevisiae Ntf2
pdb|1GY7|C Chain C, N77y Point Mutant Of S.Cerevisiae Ntf2
pdb|1GY7|D Chain D, N77y Point Mutant Of S.Cerevisiae Ntf2
pdb|1GYB|A Chain A, N77y Point Mutant Of Yntf2 Bound To Fxfg Nucleoporin
Repeat
pdb|1GYB|B Chain B, N77y Point Mutant Of Yntf2 Bound To Fxfg Nucleoporin
Repeat
pdb|1GYB|C Chain C, N77y Point Mutant Of Yntf2 Bound To Fxfg Nucleoporin
Repeat
pdb|1GYB|D Chain D, N77y Point Mutant Of Yntf2 Bound To Fxfg Nucleoporin
Repeat
Length = 125
Score = 48.5 bits (114), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 39/121 (32%), Positives = 49/121 (40%), Gaps = 38/121 (31%)
Query: 9 YEAIGKGFVQQYYALFDDPAQRPNLINMYNTETSFMTFEGIQLQGAVKIMEKF------- 61
+ + + F Q YY FD R L N+Y E S +TFE QLQGA I+EK
Sbjct: 5 FNTLAQNFTQFYYNQFD--TDRSQLGNLYRNE-SMLTFETSQLQGAKDIVEKLVSLPFQK 61
Query: 62 ------NCDDDP----------------------PHAYSQIFVLKPLGASFYCQHDIFRL 93
D P P +SQ+F L P G S+Y +DIFRL
Sbjct: 62 VQHRITTLDAQPASPYGDVLVMITGDLLIDEEQNPQRFSQVFHLIPDGNSYYVFNDIFRL 121
Query: 94 G 94
Sbjct: 122 N 122
>pdb|3U8E|A Chain A, Crystal Structure Of Cysteine Protease From Bulbs Of
Crocus Sativus At 1.3 A Resolution
Length = 222
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 26/56 (46%), Gaps = 6/56 (10%)
Query: 22 ALFDDPAQRPNLINMYNTETSFMTFEGIQLQGAVKIMEKFNCDDDPPHAYSQIFVL 77
AL D A++P +N+Y + TSF + G I +C DDP + ++
Sbjct: 118 ALLDAVAKQPVSVNIYTSSTSFQLYTG------PGIFAGSSCSDDPATVDHTVLIV 167
>pdb|3UJM|A Chain A, Crystal Structure Of The Ntf2-Like Domain Of The
Drosophila Melanogaster Rasputin Protein
pdb|3UJM|B Chain B, Crystal Structure Of The Ntf2-Like Domain Of The
Drosophila Melanogaster Rasputin Protein
Length = 120
Score = 30.0 bits (66), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 27/120 (22%), Positives = 46/120 (38%), Gaps = 38/120 (31%)
Query: 8 AYEAIGKGFVQQYYALFDDPAQRPN-LINMYNTETSFMTFEGIQLQG------------- 53
++ ++G+ FV+QYY L + PN L YN +S++ E + G
Sbjct: 2 SHMSVGREFVRQYYTLLNKA---PNHLHRFYNHNSSYIHGESKLVVGQREIHNRIQQLNF 58
Query: 54 --------------------AVKIMEKFNCDDDPPHAYSQIFVLKPLG-ASFYCQHDIFR 92
V++ + + D P ++Q FVL +Y +DIFR
Sbjct: 59 NDCHAKISQVDAQATLGNGVVVQVTGELSNDGQPMRRFTQTFVLAAQSPKKYYVHNDIFR 118
>pdb|3Q90|A Chain A, Crystal Structure Of The Ntf2 Domain Of Ras
Gtpase-Activating Protein- Binding Protein 1
pdb|3Q90|B Chain B, Crystal Structure Of The Ntf2 Domain Of Ras
Gtpase-Activating Protein- Binding Protein 1
Length = 140
Score = 28.5 bits (62), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 27/130 (20%), Positives = 47/130 (36%), Gaps = 47/130 (36%)
Query: 7 PAYEAIGKGFVQQYYALFDDPAQRPNLINMYNTETSFMTFEGIQLQG------------- 53
P+ +G+ FV+QYY L + Q P++++ + + S G+ G
Sbjct: 7 PSPLLVGREFVRQYYTLLN---QAPDMLHRFYGKNSSYVHGGLDSNGKPADAVYGQKEIH 63
Query: 54 ----------------------------AVKIMEKFNCDDDPPHAYSQIFVLKPLGA--- 82
V++M + ++ + Q FVL P G+
Sbjct: 64 RKVMSQNFTNCHTKIRHVDAHATLNDGVVVQVMGLLSNNNQALRRFMQTFVLAPEGSVAN 123
Query: 83 SFYCQHDIFR 92
FY +DIFR
Sbjct: 124 KFYVHNDIFR 133
>pdb|3SFW|A Chain A, Crystal Structure Of Dihydropyrimidinase From
Brevibacillus Agri Nchu1002
pdb|3SFW|B Chain B, Crystal Structure Of Dihydropyrimidinase From
Brevibacillus Agri Nchu1002
Length = 461
Score = 26.2 bits (56), Expect = 5.4, Method: Composition-based stats.
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 23 LFDDPAQRPNLINMYNTETSFMTFEGIQLQGAV 55
LFD QR + ++ + FEG+Q+ G V
Sbjct: 395 LFDPTVQRTISVETHHMNVDYNPFEGMQVHGDV 427
>pdb|3ETC|A Chain A, 2.1 A Structure Of Acyl-Adenylate Synthetase From
Methanosarcina Acetivorans Containing A Link Between
Lys256 And Cys298
pdb|3ETC|B Chain B, 2.1 A Structure Of Acyl-Adenylate Synthetase From
Methanosarcina Acetivorans Containing A Link Between
Lys256 And Cys298
Length = 580
Score = 25.4 bits (54), Expect = 9.1, Method: Composition-based stats.
Identities = 21/93 (22%), Positives = 36/93 (38%), Gaps = 30/93 (32%)
Query: 25 DDPAQRPNLINMYNTETSFMTFEGIQLQGAVKIMEKFN---------------------C 63
DD +L++ + ++T F ++E Q + + E FN C
Sbjct: 19 DDDKHMTSLLSQFVSKTDFESYEDFQENFKILVPENFNFAYDVVDVYARDSPEKLAMIWC 78
Query: 64 DDDPPHAYSQIFVLKPL------GASFYCQHDI 90
DD + +IF K L A+F+ +H I
Sbjct: 79 DD---YGNEKIFTFKDLKYYSDKAANFFVKHGI 108
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.323 0.139 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,012,178
Number of Sequences: 62578
Number of extensions: 104138
Number of successful extensions: 225
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 190
Number of HSP's gapped (non-prelim): 27
length of query: 99
length of database: 14,973,337
effective HSP length: 65
effective length of query: 34
effective length of database: 10,905,767
effective search space: 370796078
effective search space used: 370796078
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)